2016
Authors
Sultan, MS; Martins, N; Veiga, D; Ferreira, M; Coimbra, MT;
Publication
BIOIMAGING
Abstract
Rheumatoid arthritis (RA) is a chronic inflammatory disease that primarily affects the small joints of the hand. High frequency ultrasound imaging is used to measure the inflammatory activity in the joint capsule region of Metacarpophalangeal (MCP) joint. In our previous work, the problem of bones and joint capsule segmentation was addressed and in this work we aim to automatically identify the tendon using previously segmented structures. The extensor tendon is located above the metacarpal and phalange bone and the joint capsule. Tendon and bursal involvement are frequent and often clinically dominant in early RA. Ridge-like structures are enhanced and pre-processed to reduce speckle noise using a Log-Gabor filter. These regions are then simplified using medial axis transform and vertically connected lines are removed. Adjacent lines are connected using morphological operators and short lines are filtered by thresholding. Physiological information is used to create a distance map for all the lines using prior knowledge of the bone and capsule region location. Based on this distance map, the tendon is finally segmented and its shape refined by using active contours. The segmentation algorithm was tested on 90 images and experimental results demonstrate the accuracy of the proposed algorithm. The automatic segmentation was compared with an expert manual segmentation, and a mean error of 3.7 pixels and a standard deviation of 2 pixels were achieved, which are interested results for integration into future computer-assisted decision systems.
2015
Authors
Oliveira, JH; Ferreira, V; Coimbra, MT;
Publication
BIOSIGNALS
Abstract
The first step in any non linear time series analysis, is to characterize signals in terms of periodicity, stationarity, linearity and predictability. In this work we aim to find if PCG (phonocardiogram) and ECG (electrocardiogram) time series are generated by a deterministic system and not from a random stochastic process. If PCG and ECG are non-linear deterministic systems and they are not very contaminated with noise, data should be confined to a finite dimensional manifold, which means there are structures hidden under the signal that could be used to increase our knowledge in forecasting future values of the time series. A non-linear process can give rise to very complex dynamic behaviours, even though the underlying process is purely deterministic and probably low-dimensional. To test this hypothesis, we have generated 99 surrogates and then we compared the fitting capability of AR (auto-regressive) models on the original and surrogate data. The results show with a 99\% of confidence level that PCG and ECG were generated by a deterministic process. We compared the fitting capability of an ECG and PCG to AR linear models, using a multi-channel approach. We make an assumption that if a signal is more linearly predictable than another one, it may adjust better to these AR linear models. The results showed that ECG is more linearly predictable (for both channels) than PCG, although a filtering step is needed for the first channel. Finally we show that the false nearest neighbour method is insufficient to identify the correct dimension of the attractor in the reconstructed state space for both PCG and ECG signals.
2013
Authors
Castro, A; Amorim, P; Coimbra, MT;
Publication
2013 IEEE 26TH INTERNATIONAL SYMPOSIUM ON COMPUTER-BASED MEDICAL SYSTEMS (CBMS)
Abstract
Cardiovascular variability and homeostasis control in response to precise noxious stimuli and different analgesic doses were analyzed. Cardiovascular variability was altered in response to noxious stimulation, and amplitude responses varied in a dose-dependent manner with the analgesic. Responses were more pronounced to laringoscopy/intubation, when compared to tetanic and incision stimuli. Homeostasis control was also altered in response to stimulation, demonstrating that dynamic cardiovascular control relations are modified in response to precise noxious stimuli and anesthetic drugs.
2016
Authors
Castro, A; Gomes, P; Mattos, SS; Coimbra, MT;
Publication
2016 38TH ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY (EMBC)
Abstract
Auscultation is a routine exam and the first line of screening in heart pathologies. The objective of this study was to assess if using a new data collection system, the DigiScope Collector, with a guided and automatic annotation of heart auscultation, different levels of expertise/experience users could collect similar digital auscultations. Data were collected within the Heart Caravan Initiative (Paraiba, Brasil). Patients were divided into two study groups: Group 1 evaluated by a third year medical student (User 1), and an experienced nurse (User 2); Group 2 evaluated by User 2 and an Information Technology professional (User 3). Patients were auscultated sequentially by the two users, according to the randomization. Features extracted from each data set included the length (HR) of the audio files, the number of repetitions per auscultation area, heart rate, first (S1) and second (S2) heart sound amplitudes, S2/S1, and aortic (A2) and pulmonary (P2) components of the second heart sound and relative amplitudes (P2/A2). Features extracted were compared between users using paired-sample test Wilcoxon test, and Spearman correlations (P < 0.05 considered significant). Twenty-seven patients were included in the study (13 Group 1, and 14 Group 2). No statistical significant differences were found between groups, except in the time of auscultation (User 2 consistently presented longer auscultation time). Correlation analysis showed significant correlations between extracted features from both groups: S2/S1 in Group 1, and S1, S2, A2, P2, P2/A2 amplitudes, and HR in Group 2. Using the DigiScope Collector, we were able to collect similar digital auscultations, according to the features evaluated. This may indicate that in sites with limited access to specialized clinical care, auscultation files may be acquired and used in telemedicine for an expert evaluation.
2017
Authors
Renna, F; Oliveira, J; Coimbra, MT;
Publication
2017 COMPUTING IN CARDIOLOGY (CINC)
Abstract
In this work, we present a method to extract features from heart sound signals in order to enhance segmentation performance. The approach is data-driven, since the way features are extracted from the recorded signals is adapted to the data itself. The proposed method is based on the extraction of delay vectors, which are modeled with Gaussian mixture model priors, and an information-theoretic dimensionality reduction step which aims to maximize discrimination between delay vectors in different segments of the heart sound signal. We test our approach with heart sounds from the publicly available PhysioNet dataset showing an average F-1 score of 92.6% in detecting S-1 and S-2 sounds.
2017
Authors
Riaz, F; Hassan, A; Nisar, R; Dinis Ribeiro, M; Coimbra, MT;
Publication
IEEE JOURNAL OF BIOMEDICAL AND HEALTH INFORMATICS
Abstract
The design of computer-assisted decision (CAD) systems for different biomedical imaging scenarios is a challenging task in computer vision. Sometimes, this challenge can be attributed to the image acquisition mechanisms since the lack of control on the cameras can create different visualizations of the same imaging site under different rotation, scaling, and illumination parameters, with a requirement to get a consistent diagnosis by the CAD systems. Moreover, the images acquired from different sites have specific colors, making the use of standard color spaces highly redundant. In this paper, we propose to tackle these issues by introducing novel region-based texture, and color descriptors. The proposed texture features are based on the usage of analytic Gabor filters (for compensation of illumination variations) followed by the calculation of first-and second-order statistics of the filter responses and making them invariant using some trivial mathematical operators. The proposed color features are obtained by compensating for the illumination variations in the images using homomorphic filtering followed by a bag-of-words approach to obtain the most typical colors in the images. The proposed features are used for the identification of cancer in images from two distinct imaging modalities, i.e., gastroenterology and dermoscopy. Experiments demonstrate that the proposed descriptors compares favorably to several other state-of-the-art methods, elucidating on the effectiveness of adapted features for image characterization.
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